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Table 4 Effect of vectors on vector trimming performance by three programs

From: An optimized procedure greatly improves EST vector contamination removal

Vector #EST tested Trimming Programs
   SeqClean Cross_match LUCY2 LUCY2(qul)
   CVS RVS CVS RVS CVS RVS CVS RVS
PCMV. SPORT-6.1 3000 0.03% 0.03% 3.17% 3.17% 0.30% 0.27% 0.17% 0.17%
PT7T3PAC 3000 0.00% 0.00% 0.23% 0.77% 0.10% 0.07% 0.03% 0.03%
PDNR-LIB 3000 0.30% 0.30% 1.17% 1.17% 0.00% 0.00% 0.03% 0.03%
pGEM-Teasy 2882 38.38% 0.03% 6.45% 7.15% 0.52% 0.52% 0.31% 0.31%
pTriplEx2 2318 0.04% 0.04% 9.66% 9.66% 4.66% 4.87% 5.31% 5.52%
pCR21TOPO 5 0.00% 0.00% 0.00% 0.00% 0.00% 0.00% 0.00% 0.00%
pZL1 700 1.43% 0.00% 3.86% 3.86% 2.71% 2.71% 2.29% 2.29%
pT7Blue 130 0.77% 0.00% 9.23% 9.23% 0.77% 25.38% 0.77% 25.38%
Total 15035 7.50% 0.08% 3.90% 4.14% 1.03% 1.26% 1.04% 1.28%
  1. Contamination rates of ESTs resulted from vector trimming under indicated conditions were grouped by the cloning vectors. The ratio was expressed in percentage showing the proportion of the ESTs using a specific cloning vector remained incompletely cleaned.